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NC_053010.1__YP_009999869.1__JT352_gp04__00004

Bact-Vir

NC_053010.1__YP_009999869.1__JT352_gp04__00004

Identity

Accession:
NC_053010 ↗
Kingdom:
phage

Quality

81.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Casjensviridae› Redjacvirus› Providencia_phage_vB_PreS-Stilesk

TaxID: 2761110

Cluster

View cluster (4 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 1-62
PDB
Domain cluster: representative
CATH (44)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6my0A02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.77 55.0 5.44e-01 88.7% 72.3%
1wgsA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.75 59.0 4.60e-01 88.7% 39.8%
5kcoA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.71 51.0 5.25e-01 88.7% 81.4%
4qqgG00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.69 56.0 5.36e-01 90.3% 76.4%
2l89A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.68 54.0 4.54e-01 88.7% 52.8%
3iq2A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.68 47.0 3.78e-01 72.6% 91.1%
2fhdA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.67 52.0 5.30e-01 90.3% 87.1%
2gfaB01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.67 49.0 4.91e-01 88.7% 79.0%
3bk5A00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.65 55.0 3.81e-01 98.4% 72.8%
1ixdA00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.65 52.0 4.39e-01 88.7% 65.4%
4exrA02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.64 53.0 5.14e-01 95.2% 80.3%
3agjF01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.63 51.0 4.09e-01 90.3% 57.5%
2f5tX02 2.30.30.690 Mainly Beta › Roll › SH3 type barrels. › 0.62 50.0 4.52e-01 96.8% 63.3%
1st8A01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.62 52.0 3.37e-01 100.0% 46.8%
2eyqA05 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.62 43.0 4.43e-01 90.3% 79.7%
2qi2A01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.61 48.0 4.07e-01 90.3% 51.9%
2lt1A00 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.60 48.0 4.52e-01 91.9% 73.3%
1txqA00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.60 47.0 4.52e-01 88.7% 89.2%
1m4zA01 2.30.30.490 Mainly Beta › Roll › SH3 type barrels. › Bromo adjacent homology (BAH) domain 0.60 47.0 3.41e-01 90.3% 48.5%
1xteA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.60 42.0 3.42e-01 72.6% 94.0%
1o7iB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 45.0 3.77e-01 85.5% 91.2%
3ndaA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.59 40.0 3.22e-01 72.6% 81.8%
3tdgA01 3.10.450.520 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.59 48.0 4.75e-01 93.5% 89.4%
3askA02 2.30.30.1150 Mainly Beta › Roll › SH3 type barrels. › 0.58 46.0 3.51e-01 88.7% 35.8%
4iupB01 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.58 45.0 4.50e-01 88.7% 87.1%
2k75A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 44.0 3.81e-01 85.5% 65.0%
3cpfA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.57 42.0 4.18e-01 88.7% 75.4%
2lqkA00 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.57 43.0 4.21e-01 90.3% 77.1%
4exrA01 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 48.0 4.38e-01 95.2% 71.6%
3wa2X01 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 45.0 4.11e-01 95.2% 82.8%
1uzxA00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.54 47.0 3.68e-01 100.0% 62.1%
4hntA04 3.10.600.10 Alpha Beta › Roll › pyruvate carboxylase f1077a mutant fold › pyruvate carboxylase f1077a mutant domain 0.53 38.0 3.33e-01 77.4% 89.1%
2hx0A01 3.30.1330.80 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Hypothetical protein, similar to alpha- acetolactate decarboxylase; domain 2 0.53 42.0 3.36e-01 88.7% 46.2%
2rceA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.53 44.0 3.82e-01 98.4% 68.9%
4lmiB00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 43.0 3.47e-01 95.2% 72.8%
7pkwA01 3.10.450.540 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 40.0 3.49e-01 85.5% 77.7%
5jv4A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.52 42.0 3.42e-01 98.4% 82.4%
1yuaA02 2.20.25.10 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.52 40.0 4.09e-01 93.5% 87.9%
1wzvA00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.52 45.0 3.44e-01 100.0% 89.3%
1ln1A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.52 41.0 2.97e-01 91.9% 76.4%
2lqvA00 3.10.450.300 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › YebF/Colicin-M immunity protein 0.52 42.0 3.73e-01 95.2% 79.8%
2cy5A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 38.0 3.14e-01 85.5% 45.7%
1sqiA01 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.51 37.0 2.77e-01 79.0% 82.0%
1wqsA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.50 41.0 3.62e-01 98.4% 82.5%
ECOD (69)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3750522 4.1.1.218 ↗ beta barrels › SH3 › SH3 › SH3 › PWP3A-B_N 0.79 65.0 5.30e-01 90.3% 50.0%
3177469 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.75 61.0 5.94e-01 90.3% 84.3%
3924619 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.74 60.0 4.76e-01 90.3% 45.0%
3645842 4.1.1.162 ↗ beta barrels › SH3 › SH3 › SH3 › DUF502 0.74 61.0 5.58e-01 90.3% 76.2%
3185466 4.1.1.225 ↗ beta barrels › SH3 › SH3 › SH3 › DUF7025 0.73 61.0 4.20e-01 90.3% 35.0%
3205559 4.8.1.22 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DUF7025 0.73 60.0 4.54e-01 90.3% 48.3%
3676628 4.1.1.162 ↗ beta barrels › SH3 › SH3 › SH3 › DUF502 0.72 59.0 4.76e-01 90.3% 51.7%
5012425 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.71 57.0 4.41e-01 88.7% 53.6%
3934278 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.71 57.0 4.71e-01 90.3% 50.4%
3553413 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.71 55.0 5.00e-01 90.3% 62.4%
3812766 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.71 59.0 5.66e-01 90.3% 85.7%
4013811 4.8.1.22 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DUF7025 0.70 58.0 5.12e-01 90.3% 77.8%
3584109 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 56.0 4.31e-01 88.7% 63.9%
4060846 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 58.0 4.99e-01 90.3% 81.1%
4976092 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 54.0 4.82e-01 90.3% 58.9%
3791777 4.1.1.18 ↗ beta barrels › SH3 › SH3 › SH3 › CAP_GLY 0.69 56.0 5.04e-01 88.7% 81.2%
4002655 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 57.0 4.36e-01 90.3% 58.6%
3188394 4.8.1.22 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DUF7025 0.69 56.0 4.51e-01 88.7% 63.3%
3617741 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 55.0 3.87e-01 88.7% 35.6%
3519122 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.69 55.0 4.85e-01 90.3% 60.0%
3514970 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.69 49.0 4.35e-01 88.7% 52.2%
3967986 4.7.1.2 ↗ beta barrels › SH3 › RNase P subunit p29 › RNase P subunit p29 › ROF 0.68 54.0 5.02e-01 90.3% 67.5%
3259841 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.68 56.0 5.41e-01 90.3% 92.9%
3631313 4.1.1.225 ↗ beta barrels › SH3 › SH3 › SH3 › DUF7025 0.68 59.0 4.22e-01 98.4% 74.7%
4015757 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.67 60.0 4.11e-01 100.0% 68.1%
3888395 4.1.1.18 ↗ beta barrels › SH3 › SH3 › SH3 › CAP_GLY 0.67 53.0 4.84e-01 88.7% 83.3%
3713334 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.65 51.0 5.20e-01 90.3% 90.0%
3289078 243.3.1.55 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › PF27063 0.65 55.0 5.23e-01 95.2% 86.7%
3768742 4.1.1.355 ↗ beta barrels › SH3 › SH3 › SH3 › WAC_Acf1_DNA_bd 0.64 53.0 3.48e-01 90.3% 34.6%
3768116 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.64 56.0 3.84e-01 98.4% 57.7%
4123449 4.8.1.35 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DUF1292 0.63 53.0 4.83e-01 95.2% 88.2%
4954224 4.1.1.182 ↗ beta barrels › SH3 › SH3 › SH3 › DUF2097 0.63 50.0 4.44e-01 90.3% 60.0%
4155197 243.3.1.52 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › UPF0182 0.63 50.0 3.54e-01 87.1% 64.2%
3608562 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.63 47.0 3.57e-01 88.7% 32.7%
3687101 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.62 53.0 3.46e-01 100.0% 49.0%
4030011 4.1.1.89 ↗ beta barrels › SH3 › SH3 › SH3 › SM-ATX 0.62 49.0 4.43e-01 90.3% 74.4%
3791752 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 49.0 4.88e-01 88.7% 83.1%
5037092 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.61 41.0 4.00e-01 91.9% 61.4%
3375457 4.1.1.159 ↗ beta barrels › SH3 › SH3 › SH3 › Saf4_Yju2 0.61 52.0 4.92e-01 96.8% 96.0%
3185321 4.1.1.51 ↗ beta barrels › SH3 › SH3 › SH3 › SGF29_Tudor 0.61 48.0 4.61e-01 88.7% 81.3%
3978997 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.61 54.0 4.71e-01 100.0% 78.9%
4993469 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.60 51.0 4.74e-01 95.2% 90.0%
4937158 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 40.0 4.07e-01 90.3% 70.0%
3961706 4.1.1.161 ↗ beta barrels › SH3 › SH3 › SH3 › DUF4178 0.60 49.0 4.92e-01 96.8% 87.7%
3941306 5.1.3.8 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Arylesterase 0.60 53.0 3.32e-01 100.0% 27.2%
5067458 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 46.0 4.90e-01 85.5% 94.5%
4988831 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.60 46.0 4.85e-01 87.1% 98.2%
3211350 11.10.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like 0.60 41.0 3.20e-01 72.6% 62.0%
3933891 1.1.1.8 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease › gag-asp_proteas 0.59 46.0 3.93e-01 91.9% 48.7%
5044002 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.59 47.0 3.20e-01 87.1% 97.4%
4928898 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.59 49.0 4.63e-01 95.2% 77.3%
4615629 4.1.1.449 ↗ beta barrels › SH3 › SH3 › SH3 › DUF1292 0.58 50.0 4.58e-01 98.4% 92.9%
3643549 4.1.1.139 ↗ beta barrels › SH3 › SH3 › SH3 › IF5A-like_N 0.58 45.0 4.17e-01 88.7% 66.3%
3280641 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.58 48.0 4.25e-01 98.4% 83.0%
4963019 3445.1.1.1 ↗ beta barrels › Uncharacterized protein from gene locus rrnAC0354 › Uncharacterized protein from gene locus rrnAC0354 › Uncharacterized protein from gene locus rrnAC0354 › DUF1684 0.58 50.0 3.68e-01 100.0% 40.0%
3283097 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.58 49.0 4.14e-01 98.4% 74.5%
3942912 4.1.1.323 ↗ beta barrels › SH3 › SH3 › SH3 › WYL 0.57 49.0 4.47e-01 100.0% 85.9%
5073192 211.1.1.0 ↗ a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.57 42.0 4.16e-01 79.0% 80.0%
5070387 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.56 45.0 4.34e-01 93.5% 92.0%
5030516 2.1.1.15 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.56 43.0 3.74e-01 85.5% 71.4%
4946993 4.1.1.479 ↗ beta barrels › SH3 › SH3 › SH3 › eIF-5a 0.56 43.0 4.15e-01 88.7% 75.7%
3701195 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.56 47.0 2.97e-01 100.0% 32.1%
3818311 216.1.1.3 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › UEV 0.55 45.0 3.50e-01 98.4% 64.4%
4997059 4.1.1.139 ↗ beta barrels › SH3 › SH3 › SH3 › IF5A-like_N 0.55 42.0 4.03e-01 88.7% 76.0%
4942589 4.1.1.139 ↗ beta barrels › SH3 › SH3 › SH3 › IF5A-like_N 0.54 42.0 4.07e-01 88.7% 81.4%
4946506 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.54 46.0 4.37e-01 95.2% 86.7%
3595969 216.1.1.0 ↗ a+b two layers › UBC-like › UBC-like › UBC-like 0.52 45.0 3.71e-01 98.4% 69.6%
4931072 4.1.1.139 ↗ beta barrels › SH3 › SH3 › SH3 › IF5A-like_N 0.50 37.0 3.70e-01 88.7% 78.6%
4977909 331.10.2.0 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase 0.50 40.0 3.41e-01 91.9% 52.7%
D2 medium residues 63-114
PDB
Domain cluster: representative
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3epnB01 3.20.20.540 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Radical SAM ThiC family, central domain 0.55 49.0 3.03e-01 100.0% 75.8%
3g5sA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.52 43.0 2.78e-01 100.0% 25.0%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2887752 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.65 42.0 3.86e-01 76.9% 49.3%
3617288 5.1.4.254 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, Beta-prop_NOL10_N 0.63 48.0 2.87e-01 82.7% 82.9%
4075710 108.1.1.96 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_1, EF-hand_6, EF-hand_7 0.60 40.0 3.21e-01 71.2% 43.6%
3193181 101.1.3.9 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like › Myb_DNA-bind_8 0.55 41.0 4.03e-01 76.9% 78.2%